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Osirix v5

Manufactured by Pixmeo
Sourced in Switzerland

OsiriX v5.8.1 is a DICOM viewer and PACS workstation software. It is designed to handle medical imaging data, including MRI, CT, and PET scans. The software provides tools for medical image visualization, processing, and analysis.

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Lab products found in correlation

6 protocols using osirix v5

1

Prostate Volume Segmentation and Calculation

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PV and PZ were semi-automatically segmented on axial fat-saturated T2WI MR images, in OsiriX v5.8.1 (Pixmeo, Geneva, Switzerland), as reported previously [21 (link), 22 (link)]. The radiologist (Q.Y.) with 10 years of experience in prostate MRI reviewed and manually corrected the contoured areas, under the supervision of a senior radiologist (J.L.) with over 30 years’ experience on prostate imaging. PV and PZ were calculated by multiplying the sum of contoured area on each slices by slice thickness (Supplementary Figure 1).
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2

Measuring Motor Cortex Susceptibility

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Guided by a board-certified neuroradiologist with a certificate of added qualification (10 years experience), the central sulcus and image most representative of the hand lobule were selected for each side, and the motor cortex of each subject was drawn in a standardized fashion. A semi-automated program based on OsiriX v.5.8.1 (Pixmeo Sarl, Geneva, Switzerland) was used to refine the segmentation between motor cortices and adjacent white matter and CSF by applying a simple threshold. The threshold was heuristically adjusted to ensure continuity and completeness of the cortex, and was typically in the range of 10 to 20 ppb (parts per billion). Relative susceptibility (in ppb) was calculated by subtracting adjacent susceptibility from motor cortex susceptibility.
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3

Grackle Cranium Endocranial Volume

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Skulls were CT scanned at the Pueblo Radiology Medical Group in Santa Barbara, California using a Siemans 16-slice Somatom Sensation 16 (1 mm slices, 100 Kv, 150 MAs, 380 mm FOV, soft tissue window, analyzed with bone algorithm on). Endocranial volume (cm3) was calculated using the DICOM viewer OsiriX v5.8.5 (32-bit, Pixmeo SARL, Switzerland; Figs. S1 and S2) for 1 mm cross-sectional slices (regular) and for 1 mm cross-sectional slices that were taken with the CT scanner bed moved 0.5 mm forward (offset), using the average endocranial volume regular+offset2 in analyses. The offset was added to increase the precision of the endocranial volume measurements since grackle craniums are small (approximately 20 mm in length), resulting in about 20 slices per scan (one slice every 1 mm). The offset allowed us to measure more area (one slice every 0.5 mm) by increasing the number of slices to approximately 40 per skull.
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4

High-Field MRI Phantom Imaging

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All MRI scans were performed on a 9.4T Bruker small animal MR scanner equipped with a 1H/19F dual-tunable volume RF coil (35 mm inner diameter, 50 mm length; Rapid Biomed, Würzburg, Germany), located in the Small Animal Imaging Facility (SAIF) at Texas Children's Hospital. 19F images of phantoms were acquired with an MSME scan protocol (excitation bandwidth = 2000 Hz, TR = 2000 ms, TE = 8.95 ms, and scan time = 10 min 40 s). DICOMs obtained from scans were processed using the OsiriX v.5.8.5 software (Pixmeo SARL, Bernex, Switzerland).
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5

Visceral Fat Quantification via L3 CT Imaging

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Visceral fat area at the level of L3, which has been shown to correlate well with total visceral fat volume was calculated in all patients who had a preoperative CT imaging (n = 30). Venous-phase axial images of the abdomen were exported to a workstation using OSIRIX V5.0 (Pixmeo, Sarl, Switzerland). A single slice on the level of L3, with both transverse processes visible, was selected. Semi-automated, specific tissue demarcation was performed using Hounsfield units (HU) between −150 and −50 for the delineation of visceral adipose tissue (VAT). Manual corrections were performed in case other structures outside the respective compartment were detected. The cross-sectional area of VAT was assessed.
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6

Quantifying Visceral Fat from CT Images

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For the analysis of CT images, venous-phase axial images of the abdomen were exported to a workstation using OSIRIX V5.0 (Pixmeo, Sarl, Switzerland). A single slice on the level of L3, with both transverse processes visible, was selected. Semi-automated, specific tissue demarcation was performed using Hounsfield units between −150 and −50 for the delineation of visceral adipose tissue, as described previously [19 (link)]. Manual corrections were performed in case other structures outside the respective compartment were detected (Fig 1). Using this method, the VFA (cm2) was calculated, which has been shown to correlate well with total abdominal fat volume [20 (link)]. Furthermore the visceral fat index (VFI) was calculated (VFA/m2 body height) in order to correct for patients body height.
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